Plant Circular RNA Database

Detail information of AT1G07390_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G07390_circ_g.1
					
						ID in PlantcircBase
						ath_circ_001146
					
						Alias
						1:2270577-2272534
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2270577-2272534  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G07390						
					
						Parent gene annotation
						
							Receptor like protein 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							GT-AG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						AT1G07390.5:8
AT1G07390.4:8
AT1G07390.3:11
AT1G07390.1:8
AT1G07390.2:8

General Information
CircRNA Name	AT1G07390_circ_g.1
ID in PlantcircBase	ath_circ_001146
Alias	1:2270577-2272534
Organism	Arabidpsis thaliana
Position	chr1: 2270577-2272534 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G07390
Parent gene annotation	Receptor like protein 1
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	root
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	GT-AG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	AT1G07390.5:8 AT1G07390.4:8 AT1G07390.3:11 AT1G07390.1:8 AT1G07390.2:8

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							ATTTGATTAATTTCAGGCTATTTAGGGATTTGCAGACTAATGAAACTCAGGGAGCTGGATTTGA
GCAGCAATGCTTTAACAAGTCTACCTTATTGTTTGGgttttaagagctttgggacactagataa
gctcactaccttagatttctcccataatatgttcgacaacagtatcgtcccgtttttaaatgct
gcgacatc

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 678
Transcript exons: 2270577-2270732,2270832-2270903,2271010-2271084,2271178-
2271249,2271342-2271416,2271521-2271595,2272123-2272191,
2272451-2272534
GTTTTAAGAGCTTTGGGACACTAGATAAGCTCACTACCTTAGATTTCTCCCATAATATGTTCGA
CAACAGTATCGTCCCGTTTTTAAATGCTGCGACATCGATTAGGAGTCTACATCTTGAGTCTAAT
TACATGGAAGGTGTCTTTCCTCCTCAAGAACTTTCAAACATGACAAACTTGAGAGTGTTAAACT
TGAAGGACAACAGTTTCAGCTTCTTATCTTCTCAAGGTTTAACAGATTTCAGAGATTTGGAAGT
ACTGGATCTCAGTTTCAATGGTGTCAATGACTCTGAGGCTAGTCATAGTTTAAGTACGGCGAAA
CTGAAAACACTAGATCTTAATTTCAATCCGTTGTCAGATTTTTCTCAACTTAAAGGTTTAGAAA
GCCTCCAAGAGTTACAAGTCTTGAAATTACGAGGAAATAAATTCAACCACACGCTATCTACTCA
TGTACTGAAAGATCTTAAAATGTTGCAAGAACTGGATCTCAGTGACAATGGGTTCACAAATTTA
GATCATGGCCGAGGTTTAGAGATTCCTACATCTTTACAAGTATTGGATTTCAAAAGAAATCAAT
TGTCTTTGACCCACGAAGGCTATTTAGGGATTTGCAGACTAATGAAACTCAGGGAGCTGGATTT
GAGCAGCAATGCTTTAACAAGTCTACCTTATTGTTTGG
						
					

						Genomic sequence
						
							GTTTTAAGAGCTTTGGGACACTAGATAAGCTCACTACCTTAGATTTCTCCCATAATATGTTCGA
CAACAGTATCGTCCCGTTTTTAAATGCTGCGACATCGATTAGGAGTCTACATCTTGAGTCTAAT
TACATGGAAGGTGTCTTTCCTCCTCAAGGTTATGTATTTCTTCTATATGTTTGGTTCTCTTTTT
GACATTTTTGTATATAATTCAATTGGAGATGGATTTTGACGGCTTCTTGTTCTGGTGTGGCAGA
ACTTTCAAACATGACAAACTTGAGAGTGTTAAACTTGAAGGACAACAGTTTCAGCTTCTTATCT
TCTCAAGGTAAAATATGTCAACAAACCTTTATATAGTTTTGTTGTTCCAAAAGAAAAGAGAGAA
CTAAAGAATTGATGTCAGATGACTGACTAAGTGTGACATTGAGATGCAGGTTTAACAGATTTCA
GAGATTTGGAAGTACTGGATCTCAGTTTCAATGGTGTCAATGACTCTGAGGCTAGTCATAGTGA
GTGGCTGCCTTTTTTTGCTTTGTTTTATGGAAGTGCTTACCTCTGCTGACTTATAACATCACTT
ATGAATGTGTTTCTTGGTGGTGCAGGTTTAAGTACGGCGAAACTGAAAACACTAGATCTTAATT
TCAATCCGTTGTCAGATTTTTCTCAACTTAAAGGTAGACAGAGAGTACCAGGGGATTTACATAC
ATGATCTTTATCCATTTCTGTCAACTTTCCAATTATAACTTGTGTTTTCCCGGATCTTCAGGTT
TAGAAAGCCTCCAAGAGTTACAAGTCTTGAAATTACGAGGAAATAAATTCAACCACACGCTATC
TACTCATGGTAAGTGTTATAAAACTGTTCTTGCAGAAGTGACTTATGGCTTAAAGAAGGCAATC
AAATGTATTCTGGGTTTTTCTCCTAAGAATGTTTATTTTGCCTGGCAGTACTGAAAGATCTTAA
AATGTTGCAAGAACTGGATCTCAGTGACAATGGGTTCACAAATTTAGATCATGGCCGAGGTAAG
ACATATATAGAAAGTAAAACTTGCTTGCTCTATCCTAACTGGTTTAATCTATCTACTTTAACTT
TTTTTCATAGACGTTGATGAGAGTAGAAGTGAGAAGAGATTTGATTTTAGAGAAGTTGTTCAGA
AAGTCGAGGTCAGAAATTAAAAGTTCAGCAAGCAACTATGAAGCCTAGTTTTCCTGGGTATCTT
CTATAGCTATTGTAGACCCTCTGGATAGGATTGCGTCTAAGTTTCCAGATGAGCATAACACACC
ACAAGTCAGTTACTGTGGGAGGGGTTAAAGAGACTAGAATCAGATTATGATAAAATAATTCTGG
ATATTGTTTGGTTTGGTGTAGGTTTTTGTGGTCAATAATTGAGAATAATTTCGTTGAATCAATG
TCTCATTGGTGTGTTACATTTGGGTTGGTGAATATAGAACGGTTTCCTGGGTTGCTTAACAGTC
ACTTACATGCTTATTAGAAGTGGAGCATGCAAATCTTTATCTATTTATGTATCCTTATGTTCTT
TCAACTGCAGGTTTAGAGATTCCTACATCTTTACAAGTATTGGATTTCAAAAGAAATCAATTGT
CTTTGACCCACGAAGGTGAATATTACAATAATTTTATCTTTCTTATCTTATGCATTTTTTGGTC
TAAACAGAAGAGTCACACTTTGGTCACCCTCCTAACTGAATTTATACATAGATAGATTGTGAGA
ACAGAAGAACTTAATGAGTTACATGGCTATGAAGTCTAATTAGTTCATATGATGATGGAGTTGG
TGAATATCTTGTTATTACTCTCTTTTAAAGATGAAGTTGATGATTATTCTGATTTCTTACACTC
TTATTTGATTAATTTCAGGCTATTTAGGGATTTGCAGACTAATGAAACTCAGGGAGCTGGATTT
GAGCAGCAATGCTTTAACAAGTCTACCTTATTGTTTGG
						
					

			
		

Sequences
Splice junction sequence	ATTTGATTAATTTCAGGCTATTTAGGGATTTGCAGACTAATGAAACTCAGGGAGCTGGATTTGA GCAGCAATGCTTTAACAAGTCTACCTTATTGTTTGGgttttaagagctttgggacactagataa gctcactaccttagatttctcccataatatgttcgacaacagtatcgtcccgtttttaaatgct gcgacatc
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 678 Transcript exons: 2270577-2270732,2270832-2270903,2271010-2271084,2271178- 2271249,2271342-2271416,2271521-2271595,2272123-2272191, 2272451-2272534 GTTTTAAGAGCTTTGGGACACTAGATAAGCTCACTACCTTAGATTTCTCCCATAATATGTTCGA CAACAGTATCGTCCCGTTTTTAAATGCTGCGACATCGATTAGGAGTCTACATCTTGAGTCTAAT TACATGGAAGGTGTCTTTCCTCCTCAAGAACTTTCAAACATGACAAACTTGAGAGTGTTAAACT TGAAGGACAACAGTTTCAGCTTCTTATCTTCTCAAGGTTTAACAGATTTCAGAGATTTGGAAGT ACTGGATCTCAGTTTCAATGGTGTCAATGACTCTGAGGCTAGTCATAGTTTAAGTACGGCGAAA CTGAAAACACTAGATCTTAATTTCAATCCGTTGTCAGATTTTTCTCAACTTAAAGGTTTAGAAA GCCTCCAAGAGTTACAAGTCTTGAAATTACGAGGAAATAAATTCAACCACACGCTATCTACTCA TGTACTGAAAGATCTTAAAATGTTGCAAGAACTGGATCTCAGTGACAATGGGTTCACAAATTTA GATCATGGCCGAGGTTTAGAGATTCCTACATCTTTACAAGTATTGGATTTCAAAAGAAATCAAT TGTCTTTGACCCACGAAGGCTATTTAGGGATTTGCAGACTAATGAAACTCAGGGAGCTGGATTT GAGCAGCAATGCTTTAACAAGTCTACCTTATTGTTTGG
Genomic sequence	GTTTTAAGAGCTTTGGGACACTAGATAAGCTCACTACCTTAGATTTCTCCCATAATATGTTCGA CAACAGTATCGTCCCGTTTTTAAATGCTGCGACATCGATTAGGAGTCTACATCTTGAGTCTAAT TACATGGAAGGTGTCTTTCCTCCTCAAGGTTATGTATTTCTTCTATATGTTTGGTTCTCTTTTT GACATTTTTGTATATAATTCAATTGGAGATGGATTTTGACGGCTTCTTGTTCTGGTGTGGCAGA ACTTTCAAACATGACAAACTTGAGAGTGTTAAACTTGAAGGACAACAGTTTCAGCTTCTTATCT TCTCAAGGTAAAATATGTCAACAAACCTTTATATAGTTTTGTTGTTCCAAAAGAAAAGAGAGAA CTAAAGAATTGATGTCAGATGACTGACTAAGTGTGACATTGAGATGCAGGTTTAACAGATTTCA GAGATTTGGAAGTACTGGATCTCAGTTTCAATGGTGTCAATGACTCTGAGGCTAGTCATAGTGA GTGGCTGCCTTTTTTTGCTTTGTTTTATGGAAGTGCTTACCTCTGCTGACTTATAACATCACTT ATGAATGTGTTTCTTGGTGGTGCAGGTTTAAGTACGGCGAAACTGAAAACACTAGATCTTAATT TCAATCCGTTGTCAGATTTTTCTCAACTTAAAGGTAGACAGAGAGTACCAGGGGATTTACATAC ATGATCTTTATCCATTTCTGTCAACTTTCCAATTATAACTTGTGTTTTCCCGGATCTTCAGGTT TAGAAAGCCTCCAAGAGTTACAAGTCTTGAAATTACGAGGAAATAAATTCAACCACACGCTATC TACTCATGGTAAGTGTTATAAAACTGTTCTTGCAGAAGTGACTTATGGCTTAAAGAAGGCAATC AAATGTATTCTGGGTTTTTCTCCTAAGAATGTTTATTTTGCCTGGCAGTACTGAAAGATCTTAA AATGTTGCAAGAACTGGATCTCAGTGACAATGGGTTCACAAATTTAGATCATGGCCGAGGTAAG ACATATATAGAAAGTAAAACTTGCTTGCTCTATCCTAACTGGTTTAATCTATCTACTTTAACTT TTTTTCATAGACGTTGATGAGAGTAGAAGTGAGAAGAGATTTGATTTTAGAGAAGTTGTTCAGA AAGTCGAGGTCAGAAATTAAAAGTTCAGCAAGCAACTATGAAGCCTAGTTTTCCTGGGTATCTT CTATAGCTATTGTAGACCCTCTGGATAGGATTGCGTCTAAGTTTCCAGATGAGCATAACACACC ACAAGTCAGTTACTGTGGGAGGGGTTAAAGAGACTAGAATCAGATTATGATAAAATAATTCTGG ATATTGTTTGGTTTGGTGTAGGTTTTTGTGGTCAATAATTGAGAATAATTTCGTTGAATCAATG TCTCATTGGTGTGTTACATTTGGGTTGGTGAATATAGAACGGTTTCCTGGGTTGCTTAACAGTC ACTTACATGCTTATTAGAAGTGGAGCATGCAAATCTTTATCTATTTATGTATCCTTATGTTCTT TCAACTGCAGGTTTAGAGATTCCTACATCTTTACAAGTATTGGATTTCAAAAGAAATCAATTGT CTTTGACCCACGAAGGTGAATATTACAATAATTTTATCTTTCTTATCTTATGCATTTTTTGGTC TAAACAGAAGAGTCACACTTTGGTCACCCTCCTAACTGAATTTATACATAGATAGATTGTGAGA ACAGAAGAACTTAATGAGTTACATGGCTATGAAGTCTAATTAGTTCATATGATGATGGAGTTGG TGAATATCTTGTTATTACTCTCTTTTAAAGATGAAGTTGATGATTATTCTGATTTCTTACACTC TTATTTGATTAATTTCAGGCTATTTAGGGATTTGCAGACTAATGAAACTCAGGGAGCTGGATTT GAGCAGCAATGCTTTAACAAGTCTACCTTATTGTTTGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.167025161

Conservation Information
Conserved circRNAs	NA
PMCS	0.167025161

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR157b-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	ath-miR157b-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT1G07390_circ_g.1

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